Literature DB >> 33416893

Novel insights in linking solvent relaxation dynamics and protein conformations utilizing red edge excitation shift approach.

Rupasree Brahma1, H Raghuraman1.   

Abstract

Protein hydration dynamics plays an important role in many physiological processes since protein fluctuations, slow solvation, and the dynamics of hydrating water are all intrinsically related. Red edge excitation shift (REES) is a unique and powerful wavelength-selective (i.e. excitation-energy dependent) fluorescence approach that can be used to directly monitor the environment-induced restriction and dynamics around a polar fluorophore in a complex biological system. This review is mainly focused on recent applications of REES and a novel analysis of REES data to monitor the structural dynamics, functionally relevant conformational transitions and to unmask the structural ensembles in proteins. In addition, the novel utility of REES in imaging protein aggregates in a cellular context is discussed. We believe that the enormous potential of REES approach showcased in this review will engage more researchers, particularly from life sciences.
© 2021 The Author(s). Published by Portland Press Limited on behalf of the Biochemical Society and the Royal Society of Biology.

Entities:  

Keywords:  Trp and NBD fluorescence; conformational substates; hydration dynamics; protein matrix; red edge excitation shift (REES); structural dynamics

Mesh:

Substances:

Year:  2021        PMID: 33416893      PMCID: PMC7611131          DOI: 10.1042/ETLS20200256

Source DB:  PubMed          Journal:  Emerg Top Life Sci        ISSN: 2397-8554


  66 in total

Review 1.  Dynamic insight into protein structure utilizing red edge excitation shift.

Authors:  Amitabha Chattopadhyay; Sourav Haldar
Journal:  Acc Chem Res       Date:  2013-08-28       Impact factor: 22.384

2.  Aggregation Behavior of pHLIP in Aqueous Solution at Low Concentrations: A Fluorescence Study.

Authors:  Bhagyashree D Rao; Hirak Chakraborty; Sandro Keller; Amitabha Chattopadhyay
Journal:  J Fluoresc       Date:  2018-06-29       Impact factor: 2.217

Review 3.  The Molten Globule Concept: 45 Years Later.

Authors:  V E Bychkova; G V Semisotnov; V A Balobanov; A V Finkelstein
Journal:  Biochemistry (Mosc)       Date:  2018-01       Impact factor: 2.487

4.  Instantaneous ion configurations in the K+ ion channel selectivity filter revealed by 2D IR spectroscopy.

Authors:  Huong T Kratochvil; Joshua K Carr; Kimberly Matulef; Alvin W Annen; Hui Li; Michał Maj; Jared Ostmeyer; Arnaldo L Serrano; H Raghuraman; Sean D Moran; J L Skinner; Eduardo Perozo; Benoît Roux; Francis I Valiyaveetil; Martin T Zanni
Journal:  Science       Date:  2016-09-02       Impact factor: 47.728

5.  Studies of the molten globule state of ferredoxin: structural characterization and implications on protein folding and iron-sulfur center assembly.

Authors:  Sónia S Leal; Cláudio M Gomes
Journal:  Proteins       Date:  2007-08-15

6.  Chemical substitutions in the selectivity filter of potassium channels do not rule out constricted-like conformations for C-type inactivation.

Authors:  Jing Li; Jared Ostmeyer; Eliot Boulanger; Huan Rui; Eduardo Perozo; Benoît Roux
Journal:  Proc Natl Acad Sci U S A       Date:  2017-10-02       Impact factor: 11.205

Review 7.  Water Dynamics in the Hydration Shells of Biomolecules.

Authors:  Damien Laage; Thomas Elsaesser; James T Hynes
Journal:  Chem Rev       Date:  2017-03-01       Impact factor: 60.622

8.  Extensive conformational heterogeneity within protein cores.

Authors:  Gregory R Bowman; Phillip L Geissler
Journal:  J Phys Chem B       Date:  2014-03-12       Impact factor: 2.991

Review 9.  Site-Directed Fluorescence Approaches for Dynamic Structural Biology of Membrane Peptides and Proteins.

Authors:  H Raghuraman; Satyaki Chatterjee; Anindita Das
Journal:  Front Mol Biosci       Date:  2019-09-25

10.  Recovery from slow inactivation in K+ channels is controlled by water molecules.

Authors:  Jared Ostmeyer; Sudha Chakrapani; Albert C Pan; Eduardo Perozo; Benoît Roux
Journal:  Nature       Date:  2013-07-28       Impact factor: 49.962

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  6 in total

Review 1.  Delving into Membrane Heterogeneity Utilizing Fluorescence Lifetime Distribution Analysis.

Authors:  Sourav Haldar
Journal:  J Membr Biol       Date:  2022-04-29       Impact factor: 2.426

2.  Site-directed fluorescence approaches to monitor the structural dynamics of proteins using intrinsic Trp and labeled with extrinsic fluorophores.

Authors:  Rupasree Brahma; Anindita Das; H Raghuraman
Journal:  STAR Protoc       Date:  2022-02-28

3.  Fluorescence Emission of Self-assembling Amyloid-like Peptides: Solution versus Solid State.

Authors:  Carlo Diaferia; Chiara Schiattarella; Enrico Gallo; Bartolomeo Della Ventura; Giancarlo Morelli; Raffaele Velotta; Luigi Vitagliano; Antonella Accardo
Journal:  Chemphyschem       Date:  2021-09-21       Impact factor: 3.102

4.  A Thermodynamic Model for Interpreting Tryptophan Excitation-Energy-Dependent Fluorescence Spectra Provides Insight Into Protein Conformational Sampling and Stability.

Authors:  A Kwok; I S Camacho; S Winter; M Knight; R M Meade; M W Van der Kamp; A Turner; J O'Hara; J M Mason; A R Jones; V L Arcus; C R Pudney
Journal:  Front Mol Biosci       Date:  2021-12-03

5.  Lack of Environmental Sensitivity of a Naturally Occurring Fluorescent Analog of Cholesterol.

Authors:  Amitabha Chattopadhyay; Samares C Biswas; Raju Rukmini; Satyen Saha; Anunay Samanta
Journal:  J Fluoresc       Date:  2021-07-05       Impact factor: 2.217

6.  Environment-Sensitive Fluorescence of 7-Nitrobenz-2-oxa-1,3-diazol-4-yl (NBD)-Labeled Ligands for Serotonin Receptors.

Authors:  Parijat Sarkar; Kaleeckal G Harikumar; Satinder S Rawat; Sanjib Das; Tushar K Chakraborty; Amitabha Chattopadhyay
Journal:  Molecules       Date:  2021-06-24       Impact factor: 4.411

  6 in total

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